Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative ATP synthase subunit delta, mitochondrial.

Parent gene

Gene structure

  • The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.

Chromosome Gene Transcript Category ID Start End
chr_1 g10613 g10613.t7 TTS g10613.t7 10754993 10754993
chr_1 g10613 g10613.t7 isoform g10613.t7 10755207 10755942
chr_1 g10613 g10613.t7 exon g10613.t7.exon1 10755207 10755269
chr_1 g10613 g10613.t7 cds g10613.t7.CDS1 10755207 10755269
chr_1 g10613 g10613.t7 exon g10613.t7.exon2 10755330 10755755
chr_1 g10613 g10613.t7 cds g10613.t7.CDS2 10755330 10755743
chr_1 g10613 g10613.t7 exon g10613.t7.exon3 10755941 10755942
chr_1 g10613 g10613.t7 TSS g10613.t7 10755999 10755999

Sequences

>g10613.t7 Gene=g10613 Length=491
AGCGATTATTCGACATGTCCTTTGCAGTAAGAAGCGCCCGTCTTCTCTCATCGCGTGGTC
TTCGCGTTATTCAATCGCGTGGATATGCAGATGAAATGAGCTTCACATTGGCAGCCGCTA
ATAGAGTTTTTTACGATAATGCAAATGTGAGACAAGTAGATGTTCCATCATTCAGCGGAG
CATTCGGTATCCTTCCAAAACACGTTCCCACACTTGCTGTTCTTAAACCAGGCATTGTGA
CAGTATATGAAGCCGATGGTTCACAAAAGAAAGTATTCGTTTCAAGTGGAACAATAACAG
TGAATGAAGACTCATCAGTTCAAGTACTTGCCGAAGAGGCACAACCAATTGAAAATCTTG
ATGCTAGCGCCGCTCGTGAAGTTCTCGCTAAATCACAGTCTGAATTGGCATCTGCTTCAA
CTGACAAAGCAAGAGCTGAAGCTGCAATCGCTGTTGAAGTCGCCGAAGCAATTGTAAAAG
CTGCTGAATAA

>g10613.t7 Gene=g10613 Length=158
MSFAVRSARLLSSRGLRVIQSRGYADEMSFTLAAANRVFYDNANVRQVDVPSFSGAFGIL
PKHVPTLAVLKPGIVTVYEADGSQKKVFVSSGTITVNEDSSVQVLAEEAQPIENLDASAA
REVLAKSQSELASASTDKARAEAAIAVEVAEAIVKAAE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g10613.t7 CDD cd12152 F1-ATPase_delta 28 140 1.80518E-32
9 g10613.t7 Coils Coil Coil 124 144 -
8 g10613.t7 Gene3D G3DSA:2.60.15.10 ATP Synthase; domain 1 18 115 2.1E-37
7 g10613.t7 Gene3D G3DSA:1.20.5.440 - 116 158 9.9E-7
4 g10613.t7 Hamap MF_00530 ATP synthase epsilon chain [atpC]. 26 156 16.621622
2 g10613.t7 PANTHER PTHR13822:SF7 ATP SYNTHASE SUBUNIT DELTA, MITOCHONDRIAL 25 158 1.1E-45
3 g10613.t7 PANTHER PTHR13822 ATP SYNTHASE DELTA/EPSILON CHAIN 25 158 1.1E-45
1 g10613.t7 Pfam PF02823 ATP synthase, Delta/Epsilon chain, beta-sandwich domain 28 109 3.8E-18
6 g10613.t7 SUPERFAMILY SSF51344 Epsilon subunit of F1F0-ATP synthase N-terminal domain 28 110 5.75E-22
5 g10613.t7 SUPERFAMILY SSF46604 Epsilon subunit of F1F0-ATP synthase C-terminal domain 114 156 4.71E-6
11 g10613.t7 TIGRFAM TIGR01216 ATP_synt_epsi: ATP synthase F1, epsilon subunit 35 158 7.4E-24

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0045261 proton-transporting ATP synthase complex, catalytic core F(1) CC
GO:0015986 ATP synthesis coupled proton transport BP
GO:0046933 proton-transporting ATP synthase activity, rotational mechanism MF

KEGG

Orthology

Pathway

  • This transcript belongs to the following pathways

Expression

Transcript expression in Pv11 cells

TPM values are indicated as average +/- STDEV.

Differential expression

Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below.

Raw TPM values